PMID:21876160
| Citation |
Modi, SR, Camacho, DM, Kohanski, MA, Walker, GC and Collins, JJ (2011) Functional characterization of bacterial sRNAs using a network biology approach. Proc. Natl. Acad. Sci. U.S.A. 108:15522-7 |
|---|---|
| Abstract |
Small RNAs (sRNAs) are important components of posttranscriptional regulation. These molecules are prevalent in bacterial and eukaryotic organisms, and involved in a variety of responses to environmental stresses. The functional characterization of sRNAs is challenging and requires highly focused and extensive experimental procedures. Here, using a network biology approach and a compendium of gene expression profiles, we predict functional roles and regulatory interactions for sRNAs in Escherichia coli. We experimentally validate predictions for three sRNAs in our inferred network: IsrA, GlmZ, and GcvB. Specifically, we validate a predicted role for IsrA and GlmZ in the SOS response, and we expand on current knowledge of the GcvB sRNA, demonstrating its broad role in the regulation of amino acid metabolism and transport. We also show, using the inferred network coupled with experiments, that GcvB and Lrp, a transcription factor, repress each other in a mutually inhibitory network. This work shows that a network-based approach can be used to identify the cellular function of sRNAs and characterize the relationship between sRNAs and transcription factors. |
| Links |
PubMed PMC3174649 Online version:10.1073/pnas.1104318108 |
| Keywords |
Amino Acids/metabolism; DNA Damage; Escherichia coli/genetics; Escherichia coli Proteins/genetics; Gene Expression Regulation, Bacterial; Gene Regulatory Networks/genetics; MicroRNAs/genetics; MicroRNAs/metabolism; RNA, Bacterial/genetics; RNA, Bacterial/metabolism; Systems Biology/methods |
| edit table |
Significance
You can help EcoliWiki by summarizing why this paper is useful
Useful Materials and Methods
You can help Ecoliwiki by describing the useful materials (strains, plasmids, antibodies, etc) described in this paper.
Annotations
<annotationlinks/>
EcoliWiki Links
Add links to pages that link here (e.g. gene, product, method pages)
See also
References
See Help:References for how to manage references in EcoliWiki.